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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtaagttcaatatctcttaaagtaattgtttgtctcttgaattcactgctttcgctgaattataccatcagtgaacttaacacgttagtgatatgctgtagtagcattgttgctgctgaaaacactctgtggattatgttttccctgcttgcagTTACTGGGACACTTTCGAGCCGAGGAGGCTCCCGAGTCTGAACTCAAACCTGTCCTTGCTGATGGCAG

Basic information

species Physcomitrella patens
transcript PP1S41_163V6.2
intron # 4
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|100355722|gb|BY965113.1|BY965113
EST:     ATGGAGGGGTACCACCGTCTGGAATGGCGTCAGTTTCATATCAAGAGCAG                         TTACTGGGACACTTTCGAGCCGAGGAGGCTCCCGAGTCTGAACTCAAACCT
genomic: ATGGAGGGGTACCACCGTCTGGAATGGCGTCAGTTTCATATCAAGAGCAGgtaggtaagt ... ctgcttgcagTTACTGGGACACTTTCGAGCCGAGGAGGCTCCCGAGTCTGAACTCAAACCT
EST: gi|100420676|gb|BY993459.1|BY993459
EST:     A-GG-GG--TACCACCGTCTGGAATGGCGTCAGTTTCATATCAAGAGCAG                         TTACTGGGACACTTTCGAGCCGAGGAGGCTCCCGAGTCTGAACTCAAACCT
genomic: ATGGAGGGGTACCACCGTCTGGAATGGCGTCAGTTTCATATCAAGAGCAGgtaggtaagt ... ctgcttgcagTTACTGGGACACTTTCGAGCCGAGGAGGCTCCCGAGTCTGAACTCAAACCT
EST: gi|208351989|gb|DC925798.1|DC925798
EST:     ATGGAGGGGTACCACCGTCTGGAATGGCGTCAGTTTCATATCAAGAGCAG                         TTACTGGGACACTTTCGAGCCGAGGAGGCTCCCGAGTCCGAACTCAAACCT
genomic: ATGGAGGGGTACCACCGTCTGGAATGGCGTCAGTTTCATATCAAGAGCAGgtaggtaagt ... ctgcttgcagTTACTGGGACACTTTCGAGCCGAGGAGGCTCCCGAGTCTGAACTCAAACCT
EST: gi|162196614|gb|FC374904.1|FC374904
EST:     A-GG-GG--TACCACCGTCTGGAATGGCGTCAGTTTCATATCAAGAGCAG                         G
genomic: ATGGAGGGGTACCACCGTCTGGAATGGCGTCAGTTTCATATCAAGAGCAGgtaggtaagt ... ctgcttgcag-
EST: gi|162196614|gb|FC374904.1|FC374904
EST:     A-GG-GG--TACCACCGTCTGGAATGGCGTCAGTTTCATATCAAGAGCAG                         G
genomic: ATGGAGGGGTACCACCGTCTGGAATGGCGTCAGTTTCATATCAAGAGCAGgtaggtaagt ... ctgcttgcag-


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtagcattgttgctgctgaaaacactctgtggattatgttttccctgcttgcagTTACTGGGACACTTTCGAGCCGAGGAGGCTCCCGAGTCTGAACTCAAACCTGTCCTTGCTGATGGCAG
                                     tgttttccctgctt  CT-rich tract
                                 attatgtttt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggtaagttcaatatctcttaaagtaattgtttgtctcttgaattcactgctttcgctgaattataccatcagtgaacttaacacgttagtgatatgctgtagtagcattgttgctgctgaaaacactctgtggattatgttttccctgcttgcagTTACTGGGACACTTTCGAGCCGAGGAGGCTCCCGAGTCTGAACTCAAACCTGTCCTTGCTGATGGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT